20 artículos publicados en revistas indexadas. † Primer autor; * autor de correspondencia. Perfiles: ORCID 0000-0001-5603-1437 · Google Scholar · ResearchGate · Scopus 57221527170.
Poma, A. B., Cofas-Vargas, L. F., Barroso da Silva, F. L., Pantano, S., Bally, M. Computational Methods in Physical Virology: A Critical Perspective Across Lengths and Timescales. FEMS Microbiology Reviews, 2026, 45. https://doi.org/10.1093/femsre/fuag050
Poblete, S., Poma, A. B., Cofas-Vargas, L. F., Tolmos, M., Medrano Sandonas, L. Exploring Conformational Transitions of RNA Dimers via Machine Learning Potentials. Journal of Chemical Theory and Computation, 2026. https://doi.org/10.1021/acs.jctc.6c01213
Olivos-Ramírez, G. E., Cofas-Vargas, L. F., Marrink, S. J., Poma, A. B. An optimized contact map for GōMartini 3 enabling conformational changes in protein assemblies. Biophysical Journal, 125(11), 2695–2706, 2026. https://doi.org/10.1016/j.bpj.2026.04.024
Cofas-Vargas, L. F.†*, Olivos-Ramírez, G. E., Marrink, S. J., Poma, A. B. A comparative nanomechanical study of antibody and nanobody binding to SARS-CoV-2 variants. Physical Chemistry Chemical Physics, 28(15), 9159–9171, 2026 (portada de la revista). https://doi.org/10.1039/D6CP00556J
Romero-Martínez, D., Gasteazoro, F., Cofas-Vargas, L. F., García-Hernández, E., González-Davis, O., Zavala, G., Rosiles-Becerril, D., Vazquez-Duhalt, R., Trujillo-Roldán, M. A., Valdez-Cruz, N. A. Catalytically active inclusion bodies of Bacillus clausii laccase protein recombinantly produced in E. coli for dye decolorization. Microbial Cell Factories, 25, 95, 2026. https://doi.org/10.1186/s12934-026-02949-4
García-Mejía, C. D., Almanza-Pérez, J. C., Cofas-Vargas, L. F., Aragón-Morales, A., Nieto-Camacho, A., García-Hernández, E., Hernández-Vázquez, E. Triazole-containing xanthone-furanose/pyranose hybrids: synthesis of potential α-glucosidase inhibitors. European Journal of Medicinal Chemistry, 2026. https://doi.org/10.1016/j.ejmech.2025.118384
Hinostroza-Caldas, A., Cofas-Vargas, L. F., Jones, M., Ferguson, A. L., Medrano-Sandonas, L., Poma, A. B. Recent Advances in Machine Learning and Coarse-Grained Potentials for Biomolecular Simulations and Their Applications. Biophysical Journal, 2026. https://doi.org/10.1016/j.bpj.2025.06.019
Cofas-Vargas, L. F.†, Mendoza-Espinosa, P., Montalvo-Sandoval, F. D., Pérez-Rodríguez, S., Rauda-Ceja, J. A., Hernández-Peralta, P., et al., García-Hernández, E. A unified topology-based classification of SARS-CoV-2 RBD neutralizing antibodies systematizes affinity trends across variants. mAbs, 2025. https://doi.org/10.1080/19420862.2025.2575083
Milewska, A., Cofas-Vargas, L. F., Poma, A. B., Pyrć, K. Evolution of the SARS-CoV-2 Spike Protein in Utilizing Host Transmembrane Serine Proteases. iScience, 2025. https://doi.org/10.1016/j.isci.2025.113318
Souza, P. C. T., Borges-Araújo, L., Brasnett, C., Moreira, R. A., Grünewald, F., Park, P., Wang, L., Razmazma, H., Borges-Araújo, A. C., Cofas-Vargas, L. F., Monticelli, L., Mera-Adasme, R., Melo, M. N., Wu, S., Marrink, S. J., Poma, A. B., Thallmair, S. GōMartini 3: From large conformational changes in proteins to environmental bias corrections. Nature Communications, 2025. https://doi.org/10.1038/s41467-025-58719-0
Olivos-Ramirez, E., Cofas-Vargas, L. F., Madl, T., Poma, A. B. Conformational and stability analysis of SARS-CoV-2 spike protein variants by molecular simulation. Pathogens, 2025. https://doi.org/10.3390/pathogens14030274
Ramírez-Cortés, A., Durán-Vargas, A., Rauda-Ceja, J. A., Mendoza-Espinosa, P., Cofas-Vargas, L. F., Cruz-Rangel, A., Pérez-Carreón, J. L., García-Hernández, E. Targeting Human Prostaglandin Reductase 1 with Licochalcone A: Insights from Molecular Dynamics and Covalent Docking Studies. Biophysical Chemistry, 2025. https://doi.org/10.1016/j.bpc.2025.107410
Cofas-Vargas, L. F.†*, Olivos-Ramirez, G. E., Chwastyk, M., Moreira, R. A., Baker, J. L., Marrink, S. J., Poma, A. B. Nanomechanical footprint of SARS-CoV-2 variants in complex with a potent nanobody by molecular simulations. Nanoscale, 2024 (portada de la revista). https://doi.org/10.1039/D4NR02074J
Medrano-Cerano, J. L.†, Cofas-Vargas, L. F.†, Leyva, E.†, Rauda-Ceja, J. A., Calderón-Vargas, M., Cano-Sánchez, P., Titaux-Delgado, G., Melchor-Meneses, C. M., Hernández-Arana, A., del Río-Portilla, F., García-Hernández, E. Decoding the Mechanism Governing the Structural Stability of Wheat Germ Agglutinin and Its Isolated Domains: A Combined Calorimetric, NMR, and MD Simulation Study. Protein Science, 2024. https://doi.org/10.1002/pro.5020
Cofas-Vargas, L. F.†, Moreira, R. A., Poblete, S., Chwastyk, M., Poma, A. B. The GōMartini approach: Revisiting the concept of contact maps and the modelling of protein complexes. Acta Physica Polonica A, 2024. https://doi.org/10.12693/APhysPolA.145.S9
Titaux-Delgado, G., Lopez-Giraldo, A. E., Carrillo, E., Cofas-Vargas, L. F., Carranza, L. E., López-Vera, E., García-Hernández, E., del Rio-Portilla, F. Beta-KTx14.3, a scorpion toxin, blocks the human potassium channel KCNQ1. BBA - Proteins and Proteomics, 1871(4), 140906, 2023. https://doi.org/10.1016/j.bbapap.2023.140906
Cofas-Vargas, L. F.†, Mendoza-Espinosa, P.†, Avila-Barrientos, L. P., Prada-Gracia, D., Riveros-Rosas, H., García-Hernández, E. Exploring the druggability of the binding site of aurovertin, an exogenous allosteric inhibitor of FₒF₁-ATP synthase. Frontiers in Pharmacology, 13, 1012008, 2022. https://doi.org/10.3389/fphar.2022.1012008
Avila-Barrientos, L. P.†, Cofas-Vargas, L. F.†, Agüero-Chapin, G., Hernández-García, E., Ruiz-Carmona, S., Valdez-Cruz, N. A., Trujillo-Roldán, M., Weber, J., Ruiz-Blanco, Y. B., Barril, X., García-Hernández, E. Computational Design of Inhibitors Targeting the Catalytic β Subunit of Escherichia coli FₒF₁-ATP Synthase. Antibiotics, 11, 557, 2022. https://doi.org/10.3390/antibiotics11050557
Valdez-Cruz, N. A., García-Hernández, E., Espitia, C., Cobos-Marín, L., Altamirano, C., Bando-Campos, C. G., Cofas-Vargas, L. F., Coronado-Aceves, E. W., González-Hernández, R. A., Hernández-Peralta, P., Juárez-López, D., Ortega-Portilla, P. A., Restrepo-Pineda, S., Zelada-Cordero, P., Trujillo-Roldán, M. A. Integrative overview of antibodies against SARS-CoV-2 and their possible applications in COVID-19 prophylaxis and treatment. Microbial Cell Factories, 20, 88, 2021. https://doi.org/10.1186/S12934-021-01576-5
Labra-Núñez, A.†, Cofas-Vargas, L. F.†, Gutiérrez-Magdaleno, G., Gómez-Velasco, H., Rodríguez-Hernández, A., Rodríguez-Romero, A., García-Hernández, E. Energetic and structural effects of the Tanford transition on ligand recognition of bovine β-lactoglobulin. Archives of Biochemistry and Biophysics, 699, 108750, 2021. https://doi.org/10.1016/j.abb.2020.108750